Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 39
Found at i:6133923 original size:65 final size:64
Alignment explanation
Indices: 6133805--6134013 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
6133795 TATTCAAAGG
* *
6133805 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
6133866 ATTC
61 ATTT
6133870 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * ** *
6133935 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATACATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
6133999 CATGCATCGATGCAC
1 CATGCACCGATGCAC
6134014 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 51 0.41
65 65 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:6134031 original size:64 final size:65
Alignment explanation
Indices: 6133854--6134016 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
6133844 GAATTAATTG
* * * *
6133854 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
6133919 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
6133982 A
65 A
*
6133983 AACATCGAATACATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
6134017 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 35 0.42
65 49 0.58
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:6141892 original size:198 final size:199
Alignment explanation
Indices: 6141425--6141899 Score: 507
Period size: 200 Copynumber: 2.4 Consensus size: 199
6141415 TTTGATGCAT
* * * *
6141425 AAAGCATGCTTCTGAA-CAATTTCA-ACGCGATTTTTAACCCGCTTAGAATGTCTCGAATGTAAT
1 AAAGCATGCTTCCGAACCATTTTCAGGC-CGATTTTTACCCCGCTTAGAATGTCTCGAATGTAAT
* * * * * *
6141488 GATATTAGGCTAAATTTATAGAAAAGTTGCAATATTAGCCCTTTAAGCTTATAACTTCGAAAAAT
65 GATATTAGGCTCAACTAAAAGAAAAGTTGCAATACTAGCCCTCTAAGCTTATAACTTCGAAAAAT
*
6141553 CTGCTATTTACAACCCAGAAATAACACTCAAACATGCATATGAAACACTTTTTCCTTAAACTTGA
130 CTGCTATTTACAACCCAGAAATAACACTCAAACATGCATATGAAACACTTTTGCCTTAAACTT-A
6141618 TGAACA
194 TGAACA
* * * * * *
6141624 AAAGCATTCTTCCTAACCATTTTTAGGGC-ATTTTTTGCCCCGCTTAGAATGTCTCGAATGTGAT
1 AAAGCATGCTTCCGAACCATTTTCAGGCCGA-TTTTTACCCCGCTTAGAATGTCTCGAATGTAAT
* * * * * *
6141688 GATATTATGCTCAACTAAAAGAAAAGTTGTAATACTAGGCCTCTATGCTTGTAAACTAT-GAATA
65 GATATTAGGCTCAACTAAAAGAAAAGTTGCAATACTAGCCCTCTAAGCTTAT-AACT-TCGAAAA
* * * * * * * *
6141752 TTCTGCTATTTACAACTCGGAAATAAGACTCGAACATGCCTATGAAGC-CATTTTGCCTTACACT
128 ATCTGCTATTTACAACCCAGAAATAACACTCAAACATGCATATGAAACAC-TTTTGCCTTAAACT
6141816 T-T-AACA
192 TATGAACA
* * * * *
6141822 AAATCATGCTTTCGAACCATTTTCAGGCCGATTTTTACCCCACTTAGAATGTTTCGAAT-TTATC
1 AAAGCATGCTTCCGAACCATTTTCAGGCCGATTTTTACCCCGCTTAGAATGTCTCGAATGTAAT-
6141886 GATATTAGGCTCAA
65 GATATTAGGCTCAA
6141900 ATTTAAGACA
Statistics
Matches: 226, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
197 3 0.01
198 65 0.29
199 16 0.07
200 79 0.35
201 62 0.27
202 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (199 bp):
AAAGCATGCTTCCGAACCATTTTCAGGCCGATTTTTACCCCGCTTAGAATGTCTCGAATGTAATG
ATATTAGGCTCAACTAAAAGAAAAGTTGCAATACTAGCCCTCTAAGCTTATAACTTCGAAAAATC
TGCTATTTACAACCCAGAAATAACACTCAAACATGCATATGAAACACTTTTGCCTTAAACTTATG
AACA
Found at i:6142604 original size:19 final size:18
Alignment explanation
Indices: 6142577--6142612 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6142567 TTATTTTTAT
6142577 GTTAATATTTTTTTAAATA
1 GTTAATA-TTTTTTAAATA
*
6142596 GTTATTATTTTTTAAAT
1 GTTAATATTTTTTAAAT
6142613 TAATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
GTTAATATTTTTTAAATA
Found at i:6142630 original size:36 final size:34
Alignment explanation
Indices: 6142578--6142675 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 34
6142568 TATTTTTATG
*
6142578 TTAATATTTTTTTAAATAGTTATTATTTT-TTAAA
1 TTAATATTTTTGTAAATA-TTATTATTTTATTAAA
*
6142612 TTAATATATTTATGTAAATATTATTTTTTTATTAAA
1 TTAATAT-TTT-TGTAAATATTATTATTTTATTAAA
* * * *
6142648 ATAATATTTATATAATTATTATTTATTT
1 TTAATATTTTTGTAAATATTA-TTATTT
6142676 AGAATTATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
34 16 0.30
35 19 0.36
36 18 0.34
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (34 bp):
TTAATATTTTTGTAAATATTATTATTTTATTAAA
Found at i:6142647 original size:18 final size:17
Alignment explanation
Indices: 6142584--6142647 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
6142574 TATGTTAATA
6142584 TTTTTTTAAATAGTTATT
1 TTTTTTTAAATA-TTATT
* * *
6142602 ATTTTTTAAATTAATATA
1 TTTTTTTAAA-TATTATT
* *
6142620 TTTATGTAAATATTATT
1 TTTTTTTAAATATTATT
6142637 TTTTTATTAAA
1 TTTTT-TTAAA
6142648 ATAATATTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
17 9 0.26
18 23 0.68
19 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTTTTAAATATTATT
Found at i:6142657 original size:34 final size:34
Alignment explanation
Indices: 6142579--6142676 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 34
6142569 ATTTTTATGT
* * * *
6142579 TAATATTTTTTTAAATAGTTATTATTTT-TTAAAT
1 TAATATTTATATAAATA-TTATTTTTTTATTAAAA
*
6142613 TAATATATTTATGTAAATATTATTTTTTTATTAAAA
1 T-A-ATATTTATATAAATATTATTTTTTTATTAAAA
* *
6142649 TAATATTTATATAATTATTATTTATTTA
1 TAATATTTATATAAATATTATTTTTTTA
6142677 GAATTATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
34 24 0.44
35 11 0.20
36 19 0.35
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (34 bp):
TAATATTTATATAAATATTATTTTTTTATTAAAA
Found at i:6142838 original size:17 final size:17
Alignment explanation
Indices: 6142816--6142869 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6142806 AATGTTAATA
6142816 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
6142833 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
6142850 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
6142867 TTT
1 TTT
6142870 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:6144430 original size:21 final size:21
Alignment explanation
Indices: 6144406--6144447 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6144396 GTACATACCC
*
6144406 AGCCCTCCACTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
* *
6144427 AGCCCACCAGTTTATATGCCA
1 AGCCCACCACTTCATATGCCA
6144448 TCTCCGCAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (21 bp):
AGCCCACCACTTCATATGCCA
Found at i:6144477 original size:21 final size:21
Alignment explanation
Indices: 6144451--6144523 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
6144441 TATGCCATCT
*
6144451 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
6144472 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
6144493 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
6144514 CCGCAGGGTT
1 CCGCAGGGTT
6144524 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:6145105 original size:33 final size:34
Alignment explanation
Indices: 6145046--6145142 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
6145036 AAATATTTTT
*
6145046 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
6145080 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
6145113 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
6145143 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:6145149 original size:34 final size:33
Alignment explanation
Indices: 6145044--6145149 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
6145034 ATAAATATTT
*
6145044 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
6145078 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
6145110 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
6145145 TTAAA
1 TTAAA
6145150 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:6145200 original size:42 final size:42
Alignment explanation
Indices: 6145129--6145232 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
6145119 TAAATTATAG
*
6145129 TATTCGAAATTTAACA-TTAAATTTCAACTTAATATTCCAATTA
1 TATTCGAAA-TTAAAAGTT-AATTTCAACTTAATATTCCAATTA
*
6145172 TATTCGAAATTAAAAGTTAATTTCAACTTAATATTCCAATTG
1 TATTCGAAATTAAAAGTTAATTTCAACTTAATATTCCAATTA
6145214 TATTCGAAATTAAAAGTTA
1 TATTCGAAATTAAAAGTTA
6145233 TATTCCAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
42 47 0.81
43 11 0.19
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (42 bp):
TATTCGAAATTAAAAGTTAATTTCAACTTAATATTCCAATTA
Found at i:6145813 original size:128 final size:128
Alignment explanation
Indices: 6145585--6146213 Score: 1125
Period size: 128 Copynumber: 4.9 Consensus size: 128
6145575 TTACCTGATT
* *
6145585 TACTGATATATCTAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
6145650 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
6145713 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
6145778 TGACGAAGTAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
6145841 TACTGATATATCTAGTGTCCCCGAGGGACATAAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
6145906 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
6145969 TACTGATATATCTAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
6146034 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCATTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
6146097 TACTGATATATCTAGAGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
6146162 TGACGAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
6146214 ACTCCAATTA
Statistics
Matches: 483, Mismatches: 17, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
127 1 0.00
128 482 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:6159441 original size:4 final size:4
Alignment explanation
Indices: 6159432--6159458 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6159422 CAATGCATGT
6159432 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
6159459 CATAGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:6165733 original size:10 final size:9
Alignment explanation
Indices: 6165718--6165790 Score: 74
Period size: 10 Copynumber: 7.7 Consensus size: 9
6165708 CCGGTTTTCA
6165718 ACCGGTTCTG
1 ACCGGTT-TG
*
6165728 ACCGGTTAG
1 ACCGGTTTG
*
6165737 ACCGGTTTCA
1 ACCGGTTT-G
*
6165747 ACCGGTTCG
1 ACCGGTTTG
6165756 AACCGGTTTG
1 -ACCGGTTTG
*
6165766 ACCGGTCTG
1 ACCGGTTTG
6165775 AACCGGTTTG
1 -ACCGGTTTG
6165785 ACCGGT
1 ACCGGT
6165791 GACCTGCACC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 22 0.42
10 30 0.58
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:6165742 original size:19 final size:18
Alignment explanation
Indices: 6165717--6165790 Score: 87
Period size: 19 Copynumber: 3.9 Consensus size: 18
6165707 ACCGGTTTTC
6165717 AACCGGTTCTGACCGGTT-
1 AACCGGTT-TGACCGGTTG
*
6165735 AGACCGGTTTCAACCGGTTCG
1 A-ACCGGTTT-GACCGGTT-G
6165756 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGT-TG
6165775 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
6165791 GACCTGCACC
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.04
19 37 0.76
20 9 0.18
21 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.26
Consensus pattern (18 bp):
AACCGGTTTGACCGGTTG
Found at i:6165750 original size:29 final size:29
Alignment explanation
Indices: 6165707--6165790 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
6165697 GCTGCTGGAA
6165707 ACCGGTTTTCAACCGGTTCTGACCGGTTAG
1 ACCGG-TTTCAACCGGTTCTGACCGGTTAG
*
6165737 ACCGGTTTCAACCGGTTC-GAACCGGTTTG
1 ACCGGTTTCAACCGGTTCTG-ACCGGTTAG
* *
6165766 ACCGGTCTGAACCGGTT-TGACCGGT
1 ACCGGTTTCAACCGGTTCTGACCGGT
6165791 GACCTGCACC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
28 7 0.14
29 37 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (29 bp):
ACCGGTTTCAACCGGTTCTGACCGGTTAG
Found at i:6165809 original size:22 final size:22
Alignment explanation
Indices: 6165784--6165860 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
6165774 GAACCGGTTT
*
6165784 GACCGGTGACCTG-CACCGACCC
1 GACCGGTGACCCGAC-CCGACCC
*
6165806 GACCGTTGACCCGACCCGACCC
1 GACCGGTGACCCGACCCGACCC
* * *
6165828 GACCGTTTACCCGACCCGACTC
1 GACCGGTGACCCGACCCGACCC
*
6165850 GACCGTTGACC
1 GACCGGTGACC
6165861 GTTGACTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 48 0.98
23 1 0.02
ACGTcount: A:0.18, C:0.45, G:0.23, T:0.13
Consensus pattern (22 bp):
GACCGGTGACCCGACCCGACCC
Found at i:6173061 original size:20 final size:20
Alignment explanation
Indices: 6173036--6173094 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
6173026 GGCTGCTGGA
*
6173036 AACCGGTT-TAACCAGTTTTC
1 AACCGGTTCTAACC-GGTTTC
*
6173056 AACCGGTTCTGACCGGTTTC
1 AACCGGTTCTAACCGGTTTC
*
6173076 AACCGGTTCGAACCGGTTT
1 AACCGGTTCTAACCGGTTT
6173095 GACCGGTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 30 0.88
21 4 0.12
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
AACCGGTTCTAACCGGTTTC
Found at i:6176914 original size:16 final size:16
Alignment explanation
Indices: 6176883--6176925 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
6176873 TTGTTTATTT
6176883 CAGAATGATT-AAATG
1 CAGAATGATTCAAATG
6176898 CAGAATGATTCAAATG
1 CAGAATGATTCAAATG
*
6176914 CTGAATGATTCA
1 CAGAATGATTCA
6176926 GAGGCTCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (16 bp):
CAGAATGATTCAAATG
Found at i:6177133 original size:22 final size:22
Alignment explanation
Indices: 6177058--6177127 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
6177048 CGCTGAATGC
6177058 TGAACCGTTCAGCATTTAGCGT
1 TGAACCGTTCAGCATTTAGCGT
6177080 TGAACCGTTCAGCATTTAGCGT
1 TGAACCGTTCAGCATTTAGCGT
* *
6177102 TGAACCGTTCAGCATTCAGCGC
1 TGAACCGTTCAGCATTTAGCGT
6177124 TGAA
1 TGAA
6177128 TGGTTCCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (22 bp):
TGAACCGTTCAGCATTTAGCGT
Found at i:6177586 original size:14 final size:14
Alignment explanation
Indices: 6177569--6177610 Score: 68
Period size: 15 Copynumber: 3.0 Consensus size: 14
6177559 TTAAATTAGT
6177569 TATTTTAATTTTAA
1 TATTTTAATTTTAA
6177583 TATTTTAATTTTTAA
1 TATTTTAA-TTTTAA
6177598 TATTTT-ATTTTAA
1 TATTTTAATTTTAA
6177611 AGAAAACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.22
14 9 0.33
15 12 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTAATTTTAA
Found at i:6177589 original size:8 final size:8
Alignment explanation
Indices: 6177576--6177604 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6177566 AGTTATTTTA
6177576 ATTTTAAT
1 ATTTTAAT
6177584 ATTTTAAT
1 ATTTTAAT
6177592 -TTTTAAT
1 ATTTTAAT
6177599 ATTTTA
1 ATTTTA
6177605 TTTTAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTAAT
Found at i:6177597 original size:15 final size:15
Alignment explanation
Indices: 6177569--6177608 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
6177559 TTAAATTAGT
6177569 TATTTTAA-TTTTAA
1 TATTTTAATTTTTAA
6177583 TATTTTAATTTTTAA
1 TATTTTAATTTTTAA
6177598 TATTTT-ATTTT
1 TATTTTAATTTT
6177609 AAAGAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTAATTTTTAA
Found at i:6184545 original size:26 final size:26
Alignment explanation
Indices: 6184511--6184562 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6184501 GGCCAGACCA
6184511 GACCGAACGGGTTGGGGTAGACCCGT
1 GACCGAACGGGTTGGGGTAGACCCGT
6184537 GACCGAACGGGTTGGGGTAGACCCGT
1 GACCGAACGGGTTGGGGTAGACCCGT
6184563 AACTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.15
Consensus pattern (26 bp):
GACCGAACGGGTTGGGGTAGACCCGT
Found at i:6185959 original size:7 final size:7
Alignment explanation
Indices: 6185947--6186050 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
6185937 TATGTGATAA
6185947 GGTTTAG
1 GGTTTAG
6185954 GGTTTAG
1 GGTTTAG
*
6185961 GATTTAG
1 GGTTTAG
**
6185968 AATTTA-
1 GGTTTAG
* *
6185974 TGTGATAG
1 GGT-TTAG
* *
6185982 GATTTAA
1 GGTTTAG
6185989 GGTTTAG
1 GGTTTAG
*
6185996 AGTTTAG
1 GGTTTAG
* *
6186003 AGTTTAA
1 GGTTTAG
6186010 GGTTTA-
1 GGTTTAG
*
6186016 TGTGTTAG
1 GGT-TTAG
6186024 GGTTTAG
1 GGTTTAG
6186031 GGTTTA-
1 GGTTTAG
*
6186037 TGTGTTAG
1 GGT-TTAG
6186045 GGTTTA
1 GGTTTA
6186051 AGTTATGCCA
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
6 5 0.07
7 63 0.86
8 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:6185993 original size:35 final size:35
Alignment explanation
Indices: 6185936--6186008 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
6185926 TCATAACTAA
*
6185936 TTATGTGATAAGGTTTAGGGTTTAG-GATTTAGAAT
1 TTATGTGATAAGGTTTAAGGTTTAGAG-TTTAGAAT
*
6185971 TTATGTGAT-AGGATTTAAGGTTTAGAGTTTAGAGT
1 TTATGTGATAAGG-TTTAAGGTTTAGAGTTTAGAAT
6186006 TTA
1 TTA
6186009 AGGTTTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 3 0.09
35 30 0.88
36 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGGTTTAAGGTTTAGAGTTTAGAAT
Found at i:6185994 original size:21 final size:21
Alignment explanation
Indices: 6185944--6186052 Score: 91
Period size: 21 Copynumber: 5.2 Consensus size: 21
6185934 AATTATGTGA
*
6185944 TAAGGTTTA-GGGTTTAGGATT
1 TAAGGTTTATGTG-TTAGGATT
* *
6185965 T-AGAATTTATGTGATAGGATT
1 TAAG-GTTTATGTGTTAGGATT
*
6185986 TAAGGTTTA-GAGTTTA-GAGTT
1 TAAGGTTTATGTG-TTAGGA-TT
*
6186007 TAAGGTTTATGTGTTAGGGTT
1 TAAGGTTTATGTGTTAGGATT
* *
6186028 TAGGGTTTATGTGTTAGGGTT
1 TAAGGTTTATGTGTTAGGATT
6186049 TAAG
1 TAAG
6186053 TTATGCCATG
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
20 6 0.08
21 58 0.82
22 7 0.10
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TAAGGTTTATGTGTTAGGATT
Found at i:6186016 original size:42 final size:42
Alignment explanation
Indices: 6185944--6186036 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
6185934 AATTATGTGA
*
6185944 TAAGGTTTAGGGTTTAGGATTTAGAATTTATGTGATAGGATT
1 TAAGGTTTAGAGTTTAGGATTTAGAATTTATGTGATAGGATT
* * *
6185986 TAAGGTTTAGAGTTTA-GAGTTTA-AGGTTTATGTGTTAGGGTT
1 TAAGGTTTAGAGTTTAGGA-TTTAGA-ATTTATGTGATAGGATT
*
6186028 TAGGGTTTA
1 TAAGGTTTA
6186037 TGTGTTAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 3 0.07
42 41 0.93
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (42 bp):
TAAGGTTTAGAGTTTAGGATTTAGAATTTATGTGATAGGATT
Found at i:6187772 original size:26 final size:26
Alignment explanation
Indices: 6187732--6187818 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
6187722 TCTAGTATTG
* *
6187732 GTTTTGGTGTTTGGTTCTCTGTCCCTT
1 GTTTT-GTGCTTGGTGCTCTGTCCCTT
*
6187759 GTTTTTTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
6187785 GTTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTGCTCTGTCCCTT
*
6187811 GTTGTGTG
1 GTTTTGTG
6187819 TCTGCAGGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 50 0.91
27 5 0.09
ACGTcount: A:0.00, C:0.20, G:0.28, T:0.53
Consensus pattern (26 bp):
GTTTTGTGCTTGGTGCTCTGTCCCTT
Found at i:6188210 original size:17 final size:17
Alignment explanation
Indices: 6188188--6188220 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6188178 TTCGAGTTTG
*
6188188 AGTTCGAGCTTTAATCT
1 AGTTCGAGCTTGAATCT
6188205 AGTTCGAGCTTGAATC
1 AGTTCGAGCTTGAATC
6188221 GAGCTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (17 bp):
AGTTCGAGCTTGAATCT
Found at i:6188224 original size:11 final size:11
Alignment explanation
Indices: 6188208--6188272 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
6188198 TTAATCTAGT
*
6188208 TCGAGCTTGAA
1 TCGAGCTTCAA
6188219 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
6188231 TCGAGCTTCAA
1 TCGAGCTTCAA
*
6188242 TCGAGC-TCGAGTC
1 TCGAGCTTC-A--A
6188255 TCGAGCTTCAA
1 TCGAGCTTCAA
6188266 TCGAGCT
1 TCGAGCT
6188273 CTTGAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.07
11 22 0.50
12 8 0.18
13 9 0.20
14 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:6188263 original size:24 final size:23
Alignment explanation
Indices: 6188208--6188273 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
6188198 TTAATCTAGT
*
6188208 TCGAGCTTGAATCGAGCTCAAAA
1 TCGAGCTTCAATCGAGCTCAAAA
***
6188231 TCGAGCTTCAATCGAGCTCGAGTC
1 TCGAGCTTCAATCGAGCTC-AAAA
6188255 TCGAGCTTCAATCGAGCTC
1 TCGAGCTTCAATCGAGCTC
6188274 TTGAATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
23 18 0.47
24 20 0.53
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (23 bp):
TCGAGCTTCAATCGAGCTCAAAA
Found at i:6191240 original size:3 final size:3
Alignment explanation
Indices: 6191232--6191257 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6191222 ACTCCATATC
6191232 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6191258 CAGTCTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6194463 original size:18 final size:18
Alignment explanation
Indices: 6194426--6194464 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6194416 TTAATTTTAT
*
6194426 AAATATAAAAAATCAGAA
1 AAATATAAAAAATCACAA
6194444 AAATATAAAAAAATC-CAA
1 AAATAT-AAAAAATCACAA
6194462 AAA
1 AAA
6194465 ATTACAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (18 bp):
AAATATAAAAAATCACAA
Found at i:6194528 original size:8 final size:10
Alignment explanation
Indices: 6194497--6194534 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
6194487 TATTTATCTA
6194497 ATTTTAATAT
1 ATTTTAATAT
6194507 ATTTTAATAT
1 ATTTTAATAT
6194517 ATTTT-ATA-
1 ATTTTAATAT
6194525 A-TTTAATAT
1 ATTTTAATAT
6194534 A
1 A
6194535 CTTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.12
8 4 0.15
9 4 0.15
10 15 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTAATAT
Found at i:6195204 original size:123 final size:123
Alignment explanation
Indices: 6195054--6195300 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
6195044 TGCGAAAGGA
6195054 CTGGAACAAGTTCCATTGAATCTCTTTGAAAGGACCTCCATTTCCATGGCTACCCCTCACTTTCT
1 CTGGAACAAGTTCCATTGAATCTCTTTGAAAGGACCTCCATTTCCATGGCTACCCCTCACTTTCT
6195119 TCTCTCTGTAAAATTTGTAGCTAGGATGGCAGTCGGCATAAAGAATCAAATTTTATGG
66 TCTCTCTGTAAAATTTGTAGCTAGGATGGCAGTCGGCATAAAGAATCAAATTTTATGG
6195177 CTGGAACAAGTTCCATTGAATCTCTTTGAAAGGACCTCCATTTCCATGGCTACCCCTCACTTTCT
1 CTGGAACAAGTTCCATTGAATCTCTTTGAAAGGACCTCCATTTCCATGGCTACCCCTCACTTTCT
6195242 TCTCTCTGTAAAATTTGTAGCTAGGATGGCAGTCGGCATAAAGAATCAAATTTTATGG
66 TCTCTCTGTAAAATTTGTAGCTAGGATGGCAGTCGGCATAAAGAATCAAATTTTATGG
6195300 C
1 C
6195301 CACCAAGTGT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (123 bp):
CTGGAACAAGTTCCATTGAATCTCTTTGAAAGGACCTCCATTTCCATGGCTACCCCTCACTTTCT
TCTCTCTGTAAAATTTGTAGCTAGGATGGCAGTCGGCATAAAGAATCAAATTTTATGG
Found at i:6200789 original size:29 final size:29
Alignment explanation
Indices: 6200738--6200836 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
6200728 AGATGGTCAT
* *
6200738 AGTTTAGGGATGAAATTAGAATGTTCAAA
1 AGTTTAAGGATGAAATTAAAATGTTCAAA
* *
6200767 AGTTTAAGGAT-AAATTTAAAATGAGAGTC-AT
1 AGTTTAAGGATGAAA-TTAAAAT--G-TTCAAA
* *
6200798 AGTTTGAA-GATGAAATTAAAATATTTAAA
1 AGTTT-AAGGATGAAATTAAAATGTTCAAA
6200827 AGTTTAAGGA
1 AGTTTAAGGA
6200837 CTAATTTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
28 6 0.11
29 24 0.44
31 17 0.31
32 7 0.13
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (29 bp):
AGTTTAAGGATGAAATTAAAATGTTCAAA
Found at i:6200811 original size:60 final size:60
Alignment explanation
Indices: 6200733--6200848 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
6200723 TAGAAAGATG
* * *
6200733 GTCATAGTTTAGGGATGAAATTAGAATGTTCAAAAGTTTAAGGA-TAAATTTAAAATGAGA
1 GTCATAGTTTAGAGATGAAATTAAAATATTCAAAAGTTTAAGGACT-AATTTAAAATGAGA
*
6200793 GTCATAGTTT-GAAGATGAAATTAAAATATTTAAAAGTTTAAGGACTAATTTAAAAT
1 GTCATAGTTTAG-AGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAAAAT
6200849 AAAAGTTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 1 0.02
60 48 0.96
61 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (60 bp):
GTCATAGTTTAGAGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAAAATGAGA
Found at i:6202313 original size:2 final size:2
Alignment explanation
Indices: 6202301--6202341 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
6202291 ATCAATCATA
*
6202301 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
6202342 TATCACATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6205882 original size:14 final size:14
Alignment explanation
Indices: 6205863--6205893 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6205853 GTAAACAACC
*
6205863 AAAAGAAAAAAAGA
1 AAAAGAAAAAAACA
6205877 AAAAGAAAAAAACA
1 AAAAGAAAAAAACA
6205891 AAA
1 AAA
6205894 GATCCCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAACA
Found at i:6206915 original size:2 final size:2
Alignment explanation
Indices: 6206908--6206945 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6206898 TTTAATGTTA
6206908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6206946 TAGTATCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6206998 original size:21 final size:21
Alignment explanation
Indices: 6206950--6207012 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
6206940 ATATATTAGT
6206950 ATCATTTTAATAAAAATATTA
1 ATCATTTTAATAAAAATATTA
*
6206971 ATTATTTT-ATAAAAAGTA-TA
1 ATCATTTTAATAAAAA-TATTA
6206991 ATCCATTTTTCAA-AAAAATATT
1 AT-CA-TTTT-AATAAAAATATT
6207013 TTCTATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 11 0.32
21 10 0.29
22 6 0.18
23 6 0.18
24 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (21 bp):
ATCATTTTAATAAAAATATTA
Found at i:6211404 original size:20 final size:20
Alignment explanation
Indices: 6211375--6211432 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
6211365 TTTCAAAGTG
*
6211375 ATGCACCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
6211395 ATGCATCGATGCACCAATCC
1 ATGCATCGATGCACCAATCC
*
6211415 ATTCATCGATGCACCAAT
1 ATGCATCGATGCACCAAT
6211433 GAATAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACCAATCC
Found at i:6211484 original size:19 final size:19
Alignment explanation
Indices: 6211460--6211511 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
6211450 AATGCATCTT
6211460 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
6211479 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
6211498 ATGCATCGATGCAC
1 ATGCATCGATGCAC
6211512 TCAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGCATCGATGCACATACC
Found at i:6211582 original size:64 final size:60
Alignment explanation
Indices: 6211395--6211601 Score: 170
Period size: 64 Copynumber: 3.2 Consensus size: 60
6211385 GCACCAATCC
* **
6211395 ATGCATCGATGCACCAATCCATTCATCGATGCAC-CAATGAATAAATTG-AACATCGAATGCATC
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTC-A-GGCT--ATTGAAACATCGAATGCAT-
6211458 TT
59 TT
* * **
6211460 ATGCATCGATGCACATACCATGCATCGATGCACATACCATGC-ATCGATGCACTC-AATGCATTT
1 ATGCATCGATGCACA-ACCATGCATCGATGCAC-T--CAGGCTATTGAAACA-TCGAATGCATTT
6211523 GATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTT
1 -ATGCATCGATGCACAA-CCATGCATCGATGCACTCAGGCTA--TTGAAACATCGAATGCATTT
6211587 CATGCATCGATGCAC
1 -ATGCATCGATGCAC
6211602 TCTTAGTGCA
Statistics
Matches: 117, Mismatches: 12, Indels: 27
0.75 0.08 0.17
Matches are distributed among these distances:
61 4 0.03
62 1 0.01
63 9 0.08
64 85 0.73
65 16 0.14
67 1 0.01
68 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (60 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTGAAACATCGAATGCATTT
Found at i:6216077 original size:23 final size:23
Alignment explanation
Indices: 6216016--6216077 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
6216006 CTCATATAAA
*
6216016 TGCACCGAAGTGCCACGTAAAAT
1 TGCACCGAAGTGCCATGTAAAAT
*
6216039 TGCACCGAAGTGCCATGTAGAAT
1 TGCACCGAAGTGCCATGTAAAAT
* *
6216062 TGTACCGTAGTGCCAT
1 TGCACCGAAGTGCCAT
6216078 ATAAGATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (23 bp):
TGCACCGAAGTGCCATGTAAAAT
Found at i:6219705 original size:23 final size:22
Alignment explanation
Indices: 6219627--6219705 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
6219617 ACACTTAACA
6219627 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CCC-TTGAAT
* * * *
6219651 GTGTATCGATACA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
6219672 GTGCA-CTGATGCACGCCTTGAAT
1 GTGCATC-GATGCAC-CCTTGAAT
6219695 GTGCATCGATG
1 GTGCATCGATG
6219706 TATCCGTCGG
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.02
21 13 0.30
22 2 0.05
23 15 0.35
24 12 0.28
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:6221978 original size:24 final size:24
Alignment explanation
Indices: 6221948--6222007 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
6221938 TAACAAAAAG
6221948 GGGGAGAAGTGTAAAAGTGTTAAA
1 GGGGAGAAGTGTAAAAGTGTTAAA
6221972 GGGGAGAAGTGTAAAAGTGTTAAA
1 GGGGAGAAGTGTAAAAGTGTTAAA
6221996 GGGGAGAAGTGT
1 GGGGAGAAGTGT
6222008 TAGAGTAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.20
Consensus pattern (24 bp):
GGGGAGAAGTGTAAAAGTGTTAAA
Found at i:6222368 original size:20 final size:20
Alignment explanation
Indices: 6222339--6222376 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6222329 TTTCAAAGTG
6222339 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
6222359 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
6222377 GAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:6222445 original size:45 final size:45
Alignment explanation
Indices: 6222396--6222485 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
6222386 GCACATCGAA
6222396 TGCATCGT-ATGCATCGATGCACATA-CCATGCATCGATGCACTCAG
1 TGCAT-GTGATGCATCGATGCACA-AGCCATGCATCGATGCACTCAG
*
6222441 TGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAG
1 TGCATGTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAG
6222486 GCTATTTTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 2 0.05
45 40 0.95
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TGCATGTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAG
Found at i:6229687 original size:31 final size:28
Alignment explanation
Indices: 6229646--6229773 Score: 130
Period size: 31 Copynumber: 4.3 Consensus size: 28
6229636 TGTAATAAAT
6229646 TAAAATATATTTTTAAAAGTTAAGATAATAA
1 TAAAATATATTTTT-AAA-TTAA-ATAATAA
* * *
6229677 TAAAAGATATTTTTAACTTGAAATAAGAA
1 TAAAATATATTTTTAAATT-AAATAATAA
* * *
6229706 TAAAATATATCTTTAAATGAAGTTAATAA
1 TAAAATATATTTTTAAATTAA-ATAATAA
6229735 TAAAATATATATTTTTAAATTAAATTAATAA
1 T-AAA-ATATATTTTTAAATTAAA-TAATAA
6229766 TAAAATAT
1 TAAAATAT
6229774 TTAAATATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
28 2 0.03
29 33 0.41
30 10 0.12
31 35 0.44
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (28 bp):
TAAAATATATTTTTAAATTAAATAATAA
Found at i:6229747 original size:60 final size:60
Alignment explanation
Indices: 6229646--6229773 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 60
6229636 TGTAATAAAT
* * *
6229646 TAAAATATATTTTTAAAAGTTAAGATAATAATAAAAGATATTTTTAACTTGAAA-TAAGAA
1 TAAAATATATCTTTAAAAGTGAAGATAATAATAAAAGATATTTTTAAATT-AAATTAAGAA
* * *
6229706 TAAAATATATCTTT-AAA-TGAAGTTAATAATAAAATATATATTTTTAAATTAAATTAATAA
1 TAAAATATATCTTTAAAAGTGAAGATAATAAT-AAA-AGATATTTTTAAATTAAATTAAGAA
6229766 TAAAATAT
1 TAAAATAT
6229774 TTAAATATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
58 11 0.19
59 9 0.15
60 39 0.66
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (60 bp):
TAAAATATATCTTTAAAAGTGAAGATAATAATAAAAGATATTTTTAAATTAAATTAAGAA
Found at i:6229919 original size:16 final size:17
Alignment explanation
Indices: 6229900--6229932 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6229890 AAAATTTAAG
6229900 ATATATA-AAAGATACA
1 ATATATATAAAGATACA
*
6229916 ATATATATAAATATACA
1 ATATATATAAAGATACA
6229933 TAATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (17 bp):
ATATATATAAAGATACA
Found at i:6231911 original size:2 final size:2
Alignment explanation
Indices: 6231904--6231931 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6231894 GCATCATAAC
6231904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6231932 AGAGTGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6240647 original size:18 final size:18
Alignment explanation
Indices: 6240626--6240660 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6240616 CAAGGAAGAT
6240626 GATGACGACGACGATGAG
1 GATGACGACGACGATGAG
*
6240644 GATGACGACGATGATGA
1 GATGACGACGACGATGA
6240661 TAAGGAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.37, T:0.14
Consensus pattern (18 bp):
GATGACGACGACGATGAG
Found at i:6256848 original size:60 final size:60
Alignment explanation
Indices: 6256734--6256859 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
6256724 CTATATTTTG
* * *
6256734 AGGATG-AATTCAGAATATTTAAGATTTTAAGGACTAATTTAGAATGATAGTCATAATTTA
1 AGGATGAAATT-AAAATATTTAAGAGTTTAAGGACTAATTTAGAATGAGAGTCATAATTTA
* * * * *
6256794 ATGATGAAATTAAAATATTTAATAGTTTGAGGATTAATTTAGAATGAG-GATCATAGTTTA
1 AGGATGAAATTAAAATATTTAAGAGTTTAAGGACTAATTTAGAATGAGAG-TCATAATTTA
6256854 AGGATG
1 AGGATG
6256860 TACAATGCAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 1 0.02
60 50 0.91
61 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (60 bp):
AGGATGAAATTAAAATATTTAAGAGTTTAAGGACTAATTTAGAATGAGAGTCATAATTTA
Found at i:6259031 original size:6 final size:6
Alignment explanation
Indices: 6259020--6259050 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
6259010 ACCTTTGATA
6259020 CCTAAG CCTAAG CCTAAG CCTAAG CCTAAG C
1 CCTAAG CCTAAG CCTAAG CCTAAG CCTAAG C
6259051 GTCAGCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (6 bp):
CCTAAG
Found at i:6262602 original size:2 final size:2
Alignment explanation
Indices: 6262595--6262642 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6262585 ATCATAAGTA
6262595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6262637 AT AT AT
1 AT AT AT
6262643 TAATCAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6264669 original size:21 final size:21
Alignment explanation
Indices: 6264608--6264662 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 21
6264598 TATTGTTTTA
*
6264608 AAATATTTATCAATTCAATTT-
1 AAATATTTAT-AATTTAATTTC
6264629 --ATATTTATAATTTAATTTC
1 AAATATTTATAATTTAATTTC
6264648 AAATATTTAT-ATTTA
1 AAATATTTATAATTTA
6264663 TTATTCATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 9 0.30
19 8 0.27
20 5 0.17
21 8 0.27
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATATTTATAATTTAATTTC
Found at i:6265315 original size:40 final size:36
Alignment explanation
Indices: 6265176--6265638 Score: 250
Period size: 38 Copynumber: 12.8 Consensus size: 36
6265166 TTTGACAAAG
* *
6265176 TATAATATATAATTTTCAGAAAACGGTTTTCGAAAA--TA
1 TATAATATATAGTTTT--GAAAAC-ATTTT-GAAAATTTA
* * * *
6265214 TATATTGTATAGTTTTGAAAACATTTTTAAAATATA
1 TATAATATATAGTTTTGAAAACATTTTGAAAATTTA
* **
6265250 TATAATATAAAGTTTCAAAAACATTTTGAAAACATTTA
1 TATAATATATAGTTTTGAAAACATTTTG-AAA-ATTTA
* *
6265288 TATATTATATAGTTTTTAAAAGTCATTTTGAAAATATATATA
1 TATAATATATAGTTTTGAAAA--CATTTTG-AAA-AT-T-TA
* * *
6265330 TATAATATATATTTTTTAAAACATTTTGTAAATTATA
1 TATAATATATAGTTTTGAAAACATTTTGAAAATT-TA
* *
6265367 TATAGTATATAGTTTTGAAAATATTTTGAAAA-TTA
1 TATAATATATAGTTTTGAAAACATTTTGAAAATTTA
*
6265402 TATAGTATATAGTTTTGAAAAC---------ATTTA
1 TATAATATATAGTTTTGAAAACATTTTGAAAATTTA
*
6265429 TATAGTATATAGTTTTGAAAACA-TTT----A--TA
1 TATAATATATAGTTTTGAAAACATTTTGAAAATTTA
* * *
6265458 TAT--TATATAGTTTTTAAAAGACATTTTGAATATATA
1 TATAATATATAG-TTTTGAAA-ACATTTTGAAAATTTA
* *
6265494 TATAATATATAGATTTTAAAAAATATTTTTGAATATATATATA
1 TATAATATATAG-TTTT-GAAAACA-TTTTGAA-A-AT-T-TA
* * * **
6265537 TATATTATATAGTTTTTTAAAACGTTTCTGAAAATACA
1 TATAATATATAG-TTTTGAAAACATTT-TGAAAATTTA
**
6265575 TATAATATATAGTTTAAAAAAACATTTTGAAAATTTA
1 TATAATATATAGTTT-TGAAAACATTTTGAAAATTTA
* *
6265612 TATATTATAT-GTTTTTGAAAACTTTTT
1 TATAATATATAG-TTTTGAAAACATTTT
6265639 ATATATATTA
Statistics
Matches: 344, Mismatches: 48, Indels: 68
0.75 0.10 0.15
Matches are distributed among these distances:
26 1 0.00
27 32 0.09
28 7 0.02
29 8 0.02
30 3 0.01
31 1 0.00
34 5 0.01
35 27 0.08
36 46 0.13
37 57 0.17
38 69 0.20
39 13 0.04
40 22 0.06
41 7 0.02
42 29 0.08
43 17 0.05
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (36 bp):
TATAATATATAGTTTTGAAAACATTTTGAAAATTTA
Found at i:6265451 original size:168 final size:172
Alignment explanation
Indices: 6265273--6265589 Score: 448
Period size: 168 Copynumber: 1.9 Consensus size: 172
6265263 TTCAAAAACA
*
6265273 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGTCATTTTGAAAATATATATATATAATAT
1 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGACATTTTGAAAATATATATA-AT-ATAT
* ** *
6265338 ATATTTTTTAAAACA-TTTTG-TAAAT-TATATATAGTATATAG-TTTTGAAAATATTT-TGAAA
64 AGATTTTAAAAAACATTTTTGATAAATATATATATAGTATATAGTTTTTGAAAACATTTCTGAAA
* *
6265398 AT-TATATAGTATATAGTTTTGAAAACATTTATATAGTATATAG
129 ATACATATAATATATAGTTTTGAAAACATTTATATAGTATATAG
*
6265441 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGACATTTTGAATATATATATAATATATAG
1 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGACATTTTGAAAATATATATAATATATAG
* * * * *
6265506 ATTTTAAAAAATATTTTTGAATATATATATATATATTATATAGTTTTTTAAAACGTTTCTGAAAA
66 ATTTTAAAAAACATTTTTG-ATAAATATATATATAGTATATAGTTTTTGAAAACATTTCTGAAAA
6265571 TACATATAATATATAGTTT
130 TACATATAATATATAGTTT
6265590 AAAAAAACAT
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
166 15 0.12
167 7 0.05
168 55 0.43
169 4 0.03
170 15 0.12
171 11 0.09
172 7 0.05
173 15 0.12
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (172 bp):
TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGACATTTTGAAAATATATATAATATATAG
ATTTTAAAAAACATTTTTGATAAATATATATATAGTATATAGTTTTTGAAAACATTTCTGAAAAT
ACATATAATATATAGTTTTGAAAACATTTATATAGTATATAG
Found at i:6265483 original size:29 final size:27
Alignment explanation
Indices: 6265399--6265476 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
6265389 ATTTTGAAAA
6265399 TTATATAGTATATAGTTTTGAAAACAT
1 TTATATAGTATATAGTTTTGAAAACAT
6265426 TTATATAGTATATAGTTTTGAAAACAT
1 TTATATAGTATATAGTTTTGAAAACAT
* *
6265453 TTATATATTATATAGTTTTTAAAA
1 TTATATAGTATATAGTTTTGAAAA
6265477 GACATTTTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (27 bp):
TTATATAGTATATAGTTTTGAAAACAT
Found at i:6265484 original size:208 final size:206
Alignment explanation
Indices: 6265248--6265646 Score: 497
Period size: 208 Copynumber: 1.9 Consensus size: 206
6265238 TTTTAAAATA
* * * *
6265248 TATATAATATAAAGTTTCAAAAACATTTTGAAAACATTTATATATTATATAG-TTTTTAAAAGTC
1 TATATAATATAAAGTTTCAAAAACATTTTG--AACATATATATAATATATAGATTTTAAAAAAT-
* * *
6265312 A-TTTTGAAAATATATATATATAATATATA-TTTTTTAAAACATTT-TGTAAATTATATATAGTA
63 ATTTTTGAAAATATATATATATAATATATAGTTTTTTAAAACATTTCTG-AAAATACATATAATA
** *
6265374 TATAGTTT-TGAAAATATTTTGAAAA-TTATATAGTATATAG-TTTTGAAAACATTTATATAGTA
127 TATAGTTTAAAAAAACATTTTGAAAATTTATATAGTATAT-GTTTTTGAAAAC-TTTATATA-TA
6265436 TATAGTTTTGAAAACATT
189 TATAGTTTTGAAAACATT
* * * *
6265454 TATATATTATATAGTTTTTAAAAGACATTTTGAATATATATATAATATATAGATTTTAAAAAATA
1 TATATAATATAAAG-TTTCAAAA-ACATTTTGAACATATATATAATATATAGATTTTAAAAAATA
* * *
6265519 TTTTTGAATATATATATATATATTATATAGTTTTTTAAAACGTTTCTGAAAATACATATAATATA
64 TTTTTGAAAATATATATATATAATATATAGTTTTTTAAAACATTTCTGAAAATACATATAATATA
* *
6265584 TAGTTTAAAAAAACATTTTGAAAATTTATATATTATATGTTTTTGAAAACTTTTTATATATAT
129 TAGTTTAAAAAAACATTTTGAAAATTTATATAGTATATGTTTTTGAAAACTTTATATATATAT
6265647 TATTATTGTT
Statistics
Matches: 165, Mismatches: 19, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
206 30 0.18
207 42 0.25
208 47 0.28
209 24 0.15
210 22 0.13
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (206 bp):
TATATAATATAAAGTTTCAAAAACATTTTGAACATATATATAATATATAGATTTTAAAAAATATT
TTTGAAAATATATATATATAATATATAGTTTTTTAAAACATTTCTGAAAATACATATAATATATA
GTTTAAAAAAACATTTTGAAAATTTATATAGTATATGTTTTTGAAAACTTTATATATATATAGTT
TTGAAAACATT
Found at i:6265547 original size:81 final size:75
Alignment explanation
Indices: 6265441--6265633 Score: 228
Period size: 81 Copynumber: 2.5 Consensus size: 75
6265431 TAGTATATAG
* *
6265441 TTTTGAAAACATTTATATATTATATAGTTTTTAAAAGACATTT-TGAATATATATATAATATATA
1 TTTTG-AAA-ATTTATATATTATATAGTTTTTAAAA-ACATTTCTGAAAATACATATAATATATA
* *
6265505 GATTTTAAAAAATA
63 G-TTTAAAAAAACA
* *
6265519 TTTTTGAATATATATATATATATTATATAGTTTTTTAAAACGTTTCTGAAAATACATATAATATA
1 -TTTTGAA-A-AT-T-TATATATTATATAGTTTTTAAAAACATTTCTGAAAATACATATAATATA
6265584 TAGTTTAAAAAAACA
61 TAGTTTAAAAAAACA
*
6265599 TTTTGAAAATTTATATATTATAT-GTTTTTGAAAAC
1 TTTTGAAAATTTATATATTATATAGTTTTTAAAAAC
6265634 TTTTTATATA
Statistics
Matches: 102, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
74 11 0.11
75 12 0.12
76 1 0.01
77 2 0.02
78 3 0.03
79 15 0.15
80 16 0.16
81 42 0.41
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (75 bp):
TTTTGAAAATTTATATATTATATAGTTTTTAAAAACATTTCTGAAAATACATATAATATATAGTT
TAAAAAAACA
Found at i:6265627 original size:25 final size:25
Alignment explanation
Indices: 6265599--6265646 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
6265589 TAAAAAAACA
6265599 TTTTGAAAA-TTTATATATTATATGT
1 TTTTGAAAACTTTATATA-TATATGT
*
6265624 TTTTGAAAACTTTTTATATATAT
1 TTTTGAAAACTTTATATATATAT
6265647 TATTATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTTGAAAACTTTATATATATATGT
Found at i:6265652 original size:3 final size:3
Alignment explanation
Indices: 6265644--6265684 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
6265634 TTTTTATATA
*
6265644 TAT TAT TAT TGTT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6265685 TTCTATTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6274200 original size:90 final size:90
Alignment explanation
Indices: 6274043--6274224 Score: 328
Period size: 90 Copynumber: 2.0 Consensus size: 90
6274033 TATTTTTAAA
* *
6274043 AATAAAATTTTAAAATTACTAGATTGTGACATGTGTCACTTAACGGAGAAAACTAACGGTCCTTC
1 AATAAAATTTTAAAATTACTAGATTGTGACACGTGTCACTTAACGGAGAAAACTAACGGTCCGTC
*
6274108 ACGGCGTGGCCCATTTTGAGTAACG
66 ACGGCGTGACCCATTTTGAGTAACG
6274133 AATAAAATTTTAAAATTACTAGATTGTGACACGTGTCACTTAACGGAGAAAACTAACGGTCCGTC
1 AATAAAATTTTAAAATTACTAGATTGTGACACGTGTCACTTAACGGAGAAAACTAACGGTCCGTC
*
6274198 ACGGCGTGACCTATTTTGAGTAACG
66 ACGGCGTGACCCATTTTGAGTAACG
6274223 AA
1 AA
6274225 ATGAAACGTT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (90 bp):
AATAAAATTTTAAAATTACTAGATTGTGACACGTGTCACTTAACGGAGAAAACTAACGGTCCGTC
ACGGCGTGACCCATTTTGAGTAACG
Found at i:6274759 original size:11 final size:11
Alignment explanation
Indices: 6274743--6274772 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
6274733 ATAAAAATAT
6274743 TTAAAATTTCA
1 TTAAAATTTCA
6274754 TTAAAATTTCA
1 TTAAAATTTCA
6274765 TTAAAATT
1 TTAAAATT
6274773 ATAAGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAAATTTCA
Found at i:6275710 original size:2 final size:2
Alignment explanation
Indices: 6275703--6275741 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6275693 TTTCCTTAAA
6275703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6275742 GTGTTGTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6283764 original size:6 final size:6
Alignment explanation
Indices: 6283543--6283767 Score: 342
Period size: 6 Copynumber: 37.5 Consensus size: 6
6283533 CATTACCATT
* * * * * * * *
6283543 ACCACT ACCACT ACCACT ACCACT ACCACT ACCACT ACCACT ACCACT
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * * *
6283591 ACCACT ACCACT ACCACT ACCACT ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
6283639 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
6283687 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
6283735 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
6283768 CGAGACGAGA
Statistics
Matches: 218, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 218 1.00
ACGTcount: A:0.33, C:0.50, G:0.11, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:6284586 original size:20 final size:20
Alignment explanation
Indices: 6284563--6284901 Score: 171
Period size: 20 Copynumber: 16.6 Consensus size: 20
6284553 TTCTTTTGAC
6284563 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
6284583 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
6284603 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
6284623 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
6284643 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
6284663 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
6284686 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
6284706 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
6284726 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
6284746 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
6284769 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
** ** *
6284790 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
6284811 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
6284829 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
6284851 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
6284871 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
6284890 CGTTGCGATTTT
1 CGTTGCGATTTT
6284902 ATTGGTCATT
Statistics
Matches: 264, Mismatches: 44, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.06
20 176 0.67
21 35 0.13
22 6 0.02
23 28 0.11
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:6284609 original size:40 final size:40
Alignment explanation
Indices: 6284565--6284776 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
6284555 CTTTTGACCG
* * * *
6284565 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
* * * *
6284605 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
* *
6284645 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCG
1 TTGCGATTCTCTCAATCGCATTGCGA--TTC-TCTAAATCGCA
* *
6284688 TTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
* *
6284728 TTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCG
1 TTGCGATTCTCTCAATCGCATTGCGA--TTC-TCTAAATCGCA
6284771 TTGCGA
1 TTGCGA
6284777 ACTTGGAAGC
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 92 0.62
41 3 0.02
42 6 0.04
43 47 0.32
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGCGATTCTCTCAATCGCATTGCGATTCTCTAAATCGCA
Found at i:6284705 original size:83 final size:83
Alignment explanation
Indices: 6284565--6284776 Score: 286
Period size: 83 Copynumber: 2.6 Consensus size: 83
6284555 CTTTTGACCG
* * * * * *
6284565 TTGCGATTTTCTAAATCGCGTTGCGA--TTC-TCTCAATCGCATTGCGATTCTATAAATCGCATT
1 TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTATAAATCGCATT
* * *
6284627 GCGATTCTCTCAGTCGCA
66 GCGATTCTATAAATCGCA
* * *
6284645 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCATT
1 TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTATAAATCGCATT
6284710 GCGATTCTATAAATCGCA
66 GCGATTCTATAAATCGCA
*
6284728 TTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGA
6284777 ACTTGGAAGC
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 22 0.19
82 3 0.03
83 90 0.78
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (83 bp):
TTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTTGCGACTCTATAAATCGCATT
GCGATTCTATAAATCGCA
Found at i:6284792 original size:21 final size:21
Alignment explanation
Indices: 6284766--6284818 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
6284756 TTCTTCTAAA
6284766 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
6284787 TCGCGTTGCGAACTTGGAAGC
1 TCGCGTTGCGAACTTGGAAGC
6284808 TCGCGTTGCGA
1 TCGCGTTGCGA
6284819 TTTTCTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.25
Consensus pattern (21 bp):
TCGCGTTGCGAACTTGGAAGC
Found at i:6284891 original size:19 final size:20
Alignment explanation
Indices: 6284851--6284901 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
6284841 TTCTTTTTAA
*
6284851 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
6284871 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
6284890 CGTTGCGATTTT
1 CGTTGCGATTTT
6284902 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:6288934 original size:20 final size:20
Alignment explanation
Indices: 6288900--6288938 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
6288890 CATTATATTT
6288900 TAAAATTTTCCAATTTACTCA
1 TAAAATTTTCCAA-TTACTCA
*
6288921 TAAAA-TTTCGAATTACTC
1 TAAAATTTTCCAATTACTC
6288939 TTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAATTTTCCAATTACTCA
Found at i:6291110 original size:19 final size:19
Alignment explanation
Indices: 6291073--6291113 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
6291063 CCTCTAAAAA
6291073 TTTTAATTTTTTATGTATTT
1 TTTTAATTTTTTA-GTATTT
6291093 TTTTATATTTTTTA-TATTT
1 TTTTA-ATTTTTTAGTATTT
6291112 TT
1 TT
6291114 CATTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTAATTTTTTAGTATTT
Found at i:6292187 original size:18 final size:18
Alignment explanation
Indices: 6292164--6292207 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
6292154 GAAAAAACTC
*
6292164 AAACTCAAAACTCAATTG
1 AAACTCAAAACTCAATTA
6292182 AAACTCAAAACTCAATTA
1 AAACTCAAAACTCAATTA
6292200 AAACTCAA
1 AAACTCAA
6292208 TTCAAGCTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.55, C:0.23, G:0.02, T:0.20
Consensus pattern (18 bp):
AAACTCAAAACTCAATTA
Found at i:6295581 original size:7 final size:7
Alignment explanation
Indices: 6295569--6295616 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
6295559 ATGTGCATAA
6295569 CCTAAAC
1 CCTAAAC
6295576 CCTAAAC
1 CCTAAAC
*
6295583 CCTAAAT
1 CCTAAAC
6295590 CCT-AAC
1 CCTAAAC
**
6295596 ATATAAAC
1 -CCTAAAC
6295604 CCTAAAC
1 CCTAAAC
6295611 CCTAAA
1 CCTAAA
6295617 TCATGTCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 2 0.06
7 28 0.85
8 3 0.09
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:6295604 original size:28 final size:28
Alignment explanation
Indices: 6295571--6295646 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
6295561 GTGCATAACC
*
6295571 TAAACCCTAAACCCTAAATCCTAACATA
1 TAAACCCTAAACCCTAAATCATAACATA
**
6295599 TAAACCCTAAACCCTAAATCATGTCATA
1 TAAACCCTAAACCCTAAATCATAACATA
6295627 TAAACCCTAAACCCTAAATC
1 TAAACCCTAAACCCTAAATC
6295647 TTAAATCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (28 bp):
TAAACCCTAAACCCTAAATCATAACATA
Found at i:6295615 original size:35 final size:34
Alignment explanation
Indices: 6295569--6295686 Score: 122
Period size: 35 Copynumber: 3.6 Consensus size: 34
6295559 ATGTGCATAA
* *
6295569 CCTAAACCCTAAACCCTAAATCCTA-ACAT--A-
1 CCTAAACCCTAAACCCTAAATCATACATATAAAC
*
6295599 --TAAACCCTAAACCCTAAATCATGTCATATAAAC
1 CCTAAACCCTAAACCCTAAATCAT-ACATATAAAC
* *
6295632 CCTAAACCCTAAATCTTAAATCATATCATATAAAC
1 CCTAAACCCTAAACCCTAAATCATA-CATATAAAC
*
6295667 CCTAAACTCTAAACCCTAAA
1 CCTAAACCCTAAACCCTAAA
6295687 CTTTATCACA
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
28 21 0.30
30 3 0.04
32 1 0.01
35 46 0.65
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.24
Consensus pattern (34 bp):
CCTAAACCCTAAACCCTAAATCATACATATAAAC
Found at i:6295687 original size:14 final size:14
Alignment explanation
Indices: 6295662--6295688 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6295652 TCATATCATA
6295662 TAAACCCTAAACTC
1 TAAACCCTAAACTC
6295676 TAAACCCTAAACT
1 TAAACCCTAAACT
6295689 TTATCACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTC
Found at i:6295694 original size:35 final size:35
Alignment explanation
Indices: 6295599--6295686 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
6295589 TCCTAACATA
*
6295599 TAAACCCTAAACCCTAAATCATGTCATATAAACCC
1 TAAACCCTAAACCCTAAATCATATCATATAAACCC
* *
6295634 TAAACCCTAAATCTTAAATCATATCATATAAACCC
1 TAAACCCTAAACCCTAAATCATATCATATAAACCC
*
6295669 TAAACTCTAAACCCTAAA
1 TAAACCCTAAACCCTAAA
6295687 CTTTATCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.25
Consensus pattern (35 bp):
TAAACCCTAAACCCTAAATCATATCATATAAACCC
Found at i:6296752 original size:20 final size:20
Alignment explanation
Indices: 6296729--6296777 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
6296719 TGCGATTTTC
*
6296729 CGCAACGCAAATCTGTAAAT
1 CGCAACACAAATCTGTAAAT
* * *
6296749 CGCAACACGAATTTGTAATT
1 CGCAACACAAATCTGTAAAT
6296769 CGCAACACA
1 CGCAACACA
6296778 GAAGTCAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (20 bp):
CGCAACACAAATCTGTAAAT
Found at i:6299031 original size:18 final size:17
Alignment explanation
Indices: 6299008--6299041 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6298998 ATATTTTAAA
6299008 TAAAATACATCAAAATTT
1 TAAAATACAT-AAAATTT
*
6299026 TAAAATATATAAAATT
1 TAAAATACATAAAATT
6299042 ATAACATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAAATACATAAAATTT
Found at i:6305430 original size:5 final size:5
Alignment explanation
Indices: 6305420--6305451 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
6305410 AAGAATTGTT
6305420 GTATA GTATA GTATA GTATA GTATA GTATA GT
1 GTATA GTATA GTATA GTATA GTATA GTATA GT
6305452 CGAAAGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
GTATA
Found at i:6322017 original size:35 final size:35
Alignment explanation
Indices: 6321953--6322089 Score: 104
Period size: 35 Copynumber: 3.9 Consensus size: 35
6321943 TAATTAAATT
* *
6321953 TATTTA-TATTTTTTTAATA-TTATAAATTAAAAGA
1 TATTTATTATATTTTTAACATTTA-AAATTAAAAGA
**
6321987 TATTTATTATATTTTTAA-ATTTAAATATTAATTGGA
1 TATTTATTATATTTTTAACATTTAAA-ATTAA-AAGA
* * * *
6322023 TAATTA-TATCTTTTTGAATATTTCAAATTAAAAGGA
1 TATTTATTATATTTTT-AACATTTAAAATTAAAA-GA
*
6322059 TATTTATTAT-TTTTTAACATTTGAATATTAA
1 TATTTATTATATTTTTAACATTT-AAAATTAA
6322090 TAGGAGTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
34 9 0.11
35 32 0.39
36 32 0.39
37 9 0.11
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (35 bp):
TATTTATTATATTTTTAACATTTAAAATTAAAAGA
Found at i:6322060 original size:36 final size:34
Alignment explanation
Indices: 6321953--6322099 Score: 122
Period size: 36 Copynumber: 4.1 Consensus size: 34
6321943 TAATTAAATT
6321953 TATTTA-TATTTTTTTAATATTATAAATTAAAA-GA
1 TATTTATTA-TTTTTTAATATT-TAAATTAAAAGGA
**
6321987 TATTTATTATATTTTTAA-ATTTAAATATTAATTGGA
1 TATTTATTAT-TTTTTAATATTT-AA-ATTAAAAGGA
*
6322023 TAATTA-TATCTTTTTGAATATTTCAAATTAAAAGGA
1 TATTTATTAT-TTTTT-AATATTT-AAATTAAAAGGA
* *
6322059 TATTTATTATTTTTTAACATTTGAATATTAATAGGA
1 TATTTATTATTTTTTAATATTT-AA-ATTAAAAGGA
6322095 GTATT
1 -TATT
6322100 CAAAAATTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
33 1 0.01
34 12 0.13
35 30 0.33
36 36 0.39
37 13 0.14
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (34 bp):
TATTTATTATTTTTTAATATTTAAATTAAAAGGA
Found at i:6322067 original size:72 final size:70
Alignment explanation
Indices: 6321956--6322090 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 70
6321946 TTAAATTTAT
*
6321956 TTATATTTTTTTAATATTATAAATTAAAAGATATTTATTATATTTTTAA-ATTTAAATATTAATT
1 TTATATTTTTTGAATATTATAAATTAAAAGATATTTATTAT-TTTTTAACATTTAAATATTAATT
6322020 GGATAA
65 GGATAA
*
6322026 TTATATCTTTTTGAATATT-TCAAATTAAAAGGATATTTATTATTTTTTAACATTTGAATATTAA
1 TTATAT-TTTTTGAATATTAT-AAATTAAAA-GATATTTATTATTTTTTAACATTTAAATATTAA
6322090 T
63 T
6322091 AGGAGTATTC
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
70 7 0.12
71 27 0.46
72 25 0.42
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (70 bp):
TTATATTTTTTGAATATTATAAATTAAAAGATATTTATTATTTTTTAACATTTAAATATTAATTG
GATAA
Found at i:6323705 original size:2 final size:2
Alignment explanation
Indices: 6323659--6323695 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6323649 TAATAAAATA
6323659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6323696 AAAGATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6327366 original size:25 final size:25
Alignment explanation
Indices: 6327332--6327382 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6327322 AGTTTTGCTC
6327332 ACCTCTAGTTAAGATCTAATTTAGT
1 ACCTCTAGTTAAGATCTAATTTAGT
6327357 ACCTCTAGTTAAGATCTAATTTAGT
1 ACCTCTAGTTAAGATCTAATTTAGT
6327382 A
1 A
6327383 TTGTTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (25 bp):
ACCTCTAGTTAAGATCTAATTTAGT
Found at i:6338258 original size:28 final size:28
Alignment explanation
Indices: 6338234--6338292 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
6338224 TTACTTCGTT
6338234 CCTCTTAAACTAATATTCTGACTTCATC
1 CCTCTTAAACTAATATTCTGACTTCATC
6338262 CCTCTTAAACTAATATTCTGACTTCATC
1 CCTCTTAAACTAATATTCTGACTTCATC
6338290 CCT
1 CCT
6338293 GATTGTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.31, G:0.03, T:0.39
Consensus pattern (28 bp):
CCTCTTAAACTAATATTCTGACTTCATC
Found at i:6341902 original size:15 final size:15
Alignment explanation
Indices: 6341882--6341914 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6341872 TCCTGTTTTA
6341882 TTTAATAT-TTCAAAT
1 TTTAATATATT-AAAT
6341897 TTTAATATATTAAAT
1 TTTAATATATTAAAT
6341912 TTT
1 TTT
6341915 TATCAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAATATATTAAAT
Found at i:6344293 original size:31 final size:31
Alignment explanation
Indices: 6344256--6344317 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6344246 TGAAGAAAGA
6344256 GTGATATTTTGATAAATATTAATTTTTATGG
1 GTGATATTTTGATAAATATTAATTTTTATGG
6344287 GTGATATTTTGATAAATATTAATTTTTATGG
1 GTGATATTTTGATAAATATTAATTTTTATGG
6344318 TAATTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (31 bp):
GTGATATTTTGATAAATATTAATTTTTATGG
Found at i:6345164 original size:24 final size:22
Alignment explanation
Indices: 6345126--6345175 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 22
6345116 AAAAACTGAG
6345126 TTTT-TTTTTTTAAATAAAATA
1 TTTTATTTTTTTAAATAAAATA
6345147 TTTTATTTTTTTAAAAATAAAATA
1 TTTTATTTTTTT--AAATAAAATA
6345171 TTTTA
1 TTTTA
6345176 AAATTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.15
22 7 0.27
24 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATTTTTTTAAATAAAATA
Found at i:6345182 original size:24 final size:24
Alignment explanation
Indices: 6345137--6345183 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6345127 TTTTTTTTTT
***
6345137 AAATAAAATATTTTATTTTTTTAA
1 AAATAAAATATTTTAAAATTTTAA
6345161 AAATAAAATATTTTAAAATTTTA
1 AAATAAAATATTTTAAAATTTTA
6345184 TAAACATGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATAAAATATTTTAAAATTTTAA
Found at i:6348151 original size:22 final size:22
Alignment explanation
Indices: 6348105--6348153 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6348095 ACACAAAAAA
**
6348105 AAAAACTCTAAAACCTTATCCT
1 AAAAACTCTAAAACAATATCCT
6348127 AAAAACTCTAAAACAATA-CCTT
1 AAAAACTCTAAAACAATATCC-T
6348149 AAAAA
1 AAAAA
6348154 TAAAATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAACTCTAAAACAATATCCT
Found at i:6350342 original size:2 final size:2
Alignment explanation
Indices: 6350330--6350366 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6350320 TAGATAAAGA
6350330 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6350367 TAATGGCTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6351534 original size:19 final size:19
Alignment explanation
Indices: 6351510--6351547 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6351500 ATTTGAGCTT
6351510 GGGTTATCGATACTGAAGG
1 GGGTTATCGATACTGAAGG
6351529 GGGTTATCGATACTGAAGG
1 GGGTTATCGATACTGAAGG
6351548 AACAATATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (19 bp):
GGGTTATCGATACTGAAGG
Found at i:6352171 original size:34 final size:30
Alignment explanation
Indices: 6352133--6352201 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
6352123 TTGATATAAT
6352133 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
6352167 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
6352196 AATTTA
1 AATTTA
6352202 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:6352212 original size:29 final size:30
Alignment explanation
Indices: 6352142--6352201 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
6352132 TAATTTAAGG
6352142 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
6352173 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
6352202 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:6352428 original size:21 final size:21
Alignment explanation
Indices: 6352404--6352445 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6352394 ATTTGAATTT
*
6352404 TATGAAGTAGTATCGATACCC
1 TATGAAGGAGTATCGATACCC
*
6352425 TATGAAGGGGTATCGATACCC
1 TATGAAGGAGTATCGATACCC
6352446 CTATCGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (21 bp):
TATGAAGGAGTATCGATACCC
Found at i:6352511 original size:20 final size:22
Alignment explanation
Indices: 6352472--6352512 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
6352462 TTTTGAGCAG
6352472 AAAAATCATCCCCAAACGGCTC
1 AAAAATCATCCCCAAACGGCTC
*
6352494 AAAAA-CAT-CCCTAACGGCT
1 AAAAATCATCCCCAAACGGCT
6352513 ATTTACGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.41, C:0.34, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAATCATCCCCAAACGGCTC
Found at i:6353657 original size:19 final size:20
Alignment explanation
Indices: 6353633--6353680 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6353623 AACAATTTTC
*
6353633 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
6353652 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
6353672 TTTTGAAAA
1 TTTTGAAAA
6353681 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:6353869 original size:25 final size:26
Alignment explanation
Indices: 6353841--6353898 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
6353831 TATCATGGTC
6353841 ATAAGGAACATACTTGTCCTTTGAA-
1 ATAAGGAACATACTTGTCCTTTGAAG
6353866 ATAAGGAACATACTTGTCCTTTGAAG
1 ATAAGGAACATACTTGTCCTTTGAAG
6353892 A-AAGGAA
1 ATAAGGAA
6353899 AACGCTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (26 bp):
ATAAGGAACATACTTGTCCTTTGAAG
Found at i:6354851 original size:21 final size:21
Alignment explanation
Indices: 6354825--6354864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6354815 AAACAATTGG
6354825 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
6354846 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
6354865 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:6355045 original size:29 final size:30
Alignment explanation
Indices: 6354976--6355034 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6354966 AATTTAAGGC
6354976 AAAATGGTTTTTGGACTTGAATTGAATTTAA
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAA
6355007 AAAATGTTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
6355035 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAA
Found at i:6355259 original size:21 final size:21
Alignment explanation
Indices: 6355235--6355276 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6355225 ATTTGAATTT
*
6355235 TATGAAGTAGTACCGATACCC
1 TATGAAGGAGTACCGATACCC
*
6355256 TATGAAGGGGTACCGATACCC
1 TATGAAGGAGTACCGATACCC
6355277 CCTATTGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
TATGAAGGAGTACCGATACCC
Found at i:6357008 original size:16 final size:17
Alignment explanation
Indices: 6356981--6357013 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6356971 CTTTTAGTCA
6356981 CTTTGTAAAAGTAAATG
1 CTTTGTAAAAGTAAATG
*
6356998 CTTTG-AAAAGTCAATG
1 CTTTGTAAAAGTAAATG
6357014 TGACACCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (17 bp):
CTTTGTAAAAGTAAATG
Found at i:6360145 original size:25 final size:25
Alignment explanation
Indices: 6360106--6360153 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
6360096 ATTTATGTTT
6360106 ATAAAAATGATTATTGTAATTTATAA
1 ATAAAAATGATTATTGT-ATTTATAA
*
6360132 ATAAAAATTA-TATTGTATTTAT
1 ATAAAAATGATTATTGTATTTAT
6360154 TTTGAGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (25 bp):
ATAAAAATGATTATTGTATTTATAA
Found at i:6360263 original size:16 final size:16
Alignment explanation
Indices: 6360217--6360267 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
6360207 GGTTGATATC
6360217 AGGTTAGATCAATTTT
1 AGGTTAGATCAATTTT
* *
6360233 GAGTTTAGATTAATTTT
1 -AGGTTAGATCAATTTT
*
6360250 AGGTTAGGTCAATTTT
1 AGGTTAGATCAATTTT
6360266 AG
1 AG
6360268 ATTGGACAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (16 bp):
AGGTTAGATCAATTTT
Found at i:6361655 original size:28 final size:28
Alignment explanation
Indices: 6361619--6361753 Score: 216
Period size: 28 Copynumber: 4.8 Consensus size: 28
6361609 TGCATTGATA
** *
6361619 ATTAACAAACCTGCACCATTGTGCCCTT
1 ATTAACAAACAAGCACCATTATGCCCTT
6361647 ATTAACAAACAAGCACCATTATGCCCTT
1 ATTAACAAACAAGCACCATTATGCCCTT
6361675 ATTAACAAACAAGCACCATTATGCCCTT
1 ATTAACAAACAAGCACCATTATGCCCTT
*
6361703 ATTAATAAACAAGCACCATTATGCCCTT
1 ATTAACAAACAAGCACCATTATGCCCTT
* *
6361731 ATTAATAAACAAGCATCATTATG
1 ATTAACAAACAAGCACCATTATG
6361754 TTCGCATATC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 102 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (28 bp):
ATTAACAAACAAGCACCATTATGCCCTT
Found at i:6362738 original size:225 final size:225
Alignment explanation
Indices: 6362341--6362783 Score: 768
Period size: 225 Copynumber: 2.0 Consensus size: 225
6362331 GTAAATTATC
* *
6362341 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCATTAGT
*
6362406 TAATATTGTTAAATTTAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAATTTTTTG
66 TAATATTGTTAAATTTAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAATATTTTG
6362471 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
131 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
6362536 ACATAAATTACATAACTTTCAAAAAAGTATA
196 ACATAAATTACATAACTTT-AAAAAAGTATA
*
6362567 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTAT-ATTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATCATTAG
6362631 TTAATATTGTTAAATTTAAATTCTAAATAAT-TTTAT-AAATATCAAAACAATCAAAT-ATAATT
65 TTAATATTGTTAAATTTAAA-TCTAAATAATATTTATAAAATATCAAAACAATCAAATAAT-ATT
* *
6362693 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
128 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
6362758 GAAACATAAATTACATAACTTTAAAA
193 GAAACATAAATTACATAACTTTAAAA
6362784 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
224 6 0.03
225 107 0.51
226 65 0.31
227 30 0.14
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (225 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATCATTAGT
TAATATTGTTAAATTTAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAATATTTTG
TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAA
ACATAAATTACATAACTTTAAAAAAGTATA
Found at i:6362872 original size:20 final size:19
Alignment explanation
Indices: 6362849--6362894 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
6362839 CGATATACCA
6362849 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
6362869 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
6362889 GGTAAA
1 GGTAAA
6362895 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:6363038 original size:20 final size:19
Alignment explanation
Indices: 6363015--6363061 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
6363005 CGATATAACA
6363015 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
6363035 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
6363055 GGTAAAA
1 GGTAAAA
6363062 TGATACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:6363063 original size:17 final size:18
Alignment explanation
Indices: 6363019--6363066 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
6363009 ATAACAGGTA
6363019 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
6363038 AACAAAATGATAAAACCGGT
1 -A-AAAATGATAAAACCGGT
6363058 -AAAATGATA
1 AAAAATGATA
6363067 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:6365321 original size:21 final size:21
Alignment explanation
Indices: 6365275--6365338 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
6365265 AAGACAATCA
* *
6365275 AGAGTCGAAGAG-AACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
6365296 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
6365316 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
6365337 AG
1 AG
6365339 GAATAAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 10 0.29
21 25 0.71
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:6365414 original size:33 final size:33
Alignment explanation
Indices: 6365372--6365437 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
6365362 AAATAGATGG
*
6365372 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
6365405 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
6365438 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Done.